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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ), 'gf_id' => 'HOM05D001144', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001144' ), 'data_identifier' => 'HOM05D001144', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001144', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '541', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p03300' => 'bna', 'A02p22950' => 'bna', 'A03p01100' => 'bna', 'A05p39310' => 'bna', 'A07p04000' => 'bna', 'A08p16230' => 'bna', 'A08p21790' => 'bna', 'A10p32650' => 'bna', 'Aa31LG1G21820' => 'aar', 'Aa31LG2G13470' => 'aar', 'Aa31LG2G13480' => 'aar', 'Aa31LG2G14800' => 'aar', 'Aa31LG3G2270' => 'aar', 'Aa31LG6G12610' => 'aar', 'Aa31LG8G14530' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3962' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5495' => 'aag', 'Actinidia13077' => 'ach', 'Actinidia17386' => 'ach', 'Actinidia18007' => 'ach', 'Actinidia20563' => 'ach', 'Actinidia22911' => 'ach', 'Actinidia32014' => 'ach', 'Actinidia40022' => 'ach', 'Ah.01g007690' => 'amhyb', 'Ah.02g128990' => 'amhyb', 'Ah.03g134030' => 'amhyb', 'Ah.05g177970' => 'amhyb', 'AL1G46730' => 'aly', 'AL3G21040' => 'aly', 'AL3G49980' => 'aly', 'AL6G12610' => 'aly', 'AL7G15490' => 'aly', 'AL7G15910' => 'aly', 'Aqoxy4G03077' => 'aox', 'Aqoxy5G01041' => 'aox', 'Aqoxy6G00033' => 'aox', 'Aqoxy6G01716' => 'aox', 'Aqoxy7G01287' => 'aox', 'Aqoxy7G01289' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Y39U2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2G23RK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.45JGXG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N3GR0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7I9YB6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96WKUG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A05N5U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AIK0XD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DMY71J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JDQ1X8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC8S5I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA47EU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V10QWI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VBRE55' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4YN46' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WT9AHN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YPC54K' => 'arhy', 'AT1G32480' => 'ath', 'AT2G17130' => 'ath', 'AT3G09810' => 'ath', 'AT4G35260' => 'ath', 'AT4G35650' => 'ath', 'AT5G03290' => 'ath', 'ATR0661G480' => 'atr', 'ATR0665G412' => 'atr', 'ATR0693G214' => 'atr', 'ATR0759G017' => 'atr', 'ATR0820G253' => 'atr', 'Atru.chr2.2482' => 'acertr', 'Atru.chr3.954' => 'acertr', 'Atru.chr5.3526' => 'acertr', 'Atru.chr8.1852' => 'acertr', 'Atru.chr9.530' => 'acertr', 'AUR62012933' => 'cqu', 'AUR62018285' => 'cqu', 'AUR62027128' => 'cqu', 'AUR62027131' => 'cqu', 'AUR62027645' => 'cqu', 'AUR62037855' => 'cqu', 'AUR62039880' => 'cqu', 'AUR62040466' => 'cqu', 'AUR62041095' => 'cqu', 'BcaB01g05827' => 'bca', 'BcaB01g05849' => 'bca', 'BcaB03g11775' => 'bca', 'BcaB03g12421' => 'bca', 'BcaB03g16288' => 'bca', 'BcaB03g16461' => 'bca', 'BcaB04g17859' => 'bca', 'BcaB04g21238' => 'bca', 'BcaB07g32943' => 'bca', 'BcaB07g32944' => 'bca', 'BcaB07g32945' => 'bca', 'BcaC01g00509' => 'bca', 'BcaC01g00828' => 'bca', 'BcaC05g29487' => 'bca', 'BcaC05g29703' => 'bca', 'BcaC06g32049' => 'bca', 'BcaC06g35624' => 'bca', 'BcaC06g36223' => 'bca', 'BcaNung00614' => 'bca', 'BcaNung06158' => 'bca', 'BolC1t00355H' => 'bol', 'BolC2t06092H' => 'bol', 'BolC3t12699H' => 'bol', 'BolC3t20335H' => 'bol', 'BolC3t20784H' => 'bol', 'BolC5t34484H' => 'bol', 'BolC6t38298H' => 'bol', 'BolC7t41052H' => 'bol', 'BolC9t60080H' => 'bol', 'BraA01t00315Z' => 'bra', 'BraA02t04752Z' => 'bra', 'BraA02t04753Z' => 'bra', 'BraA02t07293Z' => 'bra', 'BraA03t09492Z' => 'bra', 'BraA05t22713Z' => 'bra', 'BraA07t28191Z' => 'bra', 'BraA08t33593Z' => 'bra', 'BraA08t34132Z' => 'bra', 'BraA10t45301Z' => 'bra', 'C01p03640' => 'bna', 'C02p00930' => 'bna', 'C03p01410' => 'bna', 'C03p80800' => 'bna', 'C03p84920' => 'bna', 'C05p58310' => 'bna', 'C06p31670' => 'bna', 'C07p06360' => 'bna', 'C09p73490' => 'bna', 'CAN.G187.1' => 'can', 'CAN.G234.6' => 'can', 'CAN.G358.82' => 'can', 'CAN.G434.5' => 'can', 'CAN.G625.51' => 'can', 'CAN.G625.52' => 'can', 'CAN.G890.74' => 'can', 'CANSAT25G0851' => 'cansat', 'CANSAT80G0073' => 'cansat', 'CANSAT80G1438' => 'cansat', 'CARHR084260' => 'chi', 'CARHR210050' => 'chi', 'CARHR243580' => 'chi', 'CARHR243990' => 'chi', 'CARHR293450' => 'chi', 'Carub.0003s0890' => 'cru', 'Carub.0003s3106' => 'cru', 'Carub.0006s0210' => 'cru', 'Carub.0007s0465' => 'cru', 'Carub.0007s0504' => 'cru', 'Ca_11484_v3' => 'car', 'Ca_15957_v3' => 'car', 'Ca_22413_v3' => 'car', 'Ca_24961_v3' => 'car', 'Ca_28807_v3' => 'car', 'CBR_g35041' => 'cbr', 'CBR_g38082' => 'cbr', 'CBR_g88811' => 'cbr', 'Cc06_g04000' => 'ccan', 'Cc08_g05550' => 'ccan', 'Cc09_g10650' => 'ccan', 'CDE02G1971' => 'cde', 'CDE04G1240' => 'cde', 'CDE04G2800' => 'cde', 'CDE04G3661' => 'cde', 'CDE07G0450' => 'cde', 'Cfa005328' => 'cfa', 'Cfa007053' => 'cfa', 'Cfa017575' => 'cfa', 'Cfa026944' => 'cfa', 'Cfa026973' => 'cfa', 'Cfa027104' => 'cfa', 'Ciclev10011936m.g' => 'ccl', 'Ciclev10025889m.g' => 'ccl', 'Ciclev10028714m.g' => 'ccl', 'CiPaw.05G088800' => 'cil', 'CiPaw.07G004500' => 'cil', 'CiPaw.09G174300' => 'cil', 'CiPaw.10G133000' => 'cil', 'ClCG01G020820' => 'cla', 'ClCG02G010350' => 'cla', 'ClCG04G009150' => 'cla', 'COL.COLO4_17936' => 'col', 'COL.COLO4_22535' => 'col', 'COL.COLO4_26993' => 'col', 'Cpa.g.sc20.195' => 'cpa', 'Cpa.g.sc92.119' => 'cpa', 'Cre02.g143250' => 'cre', 'Cre17.g728800' => 'cre', 'CsaV3_6G010190' => 'csa', 'CsaV3_6G039730' => 'csa', 'CsaV3_6G047780' => 'csa', 'CSS0019357' => 'camsi', 'CSS0023740' => 'camsi', 'CSS0030795' => 'camsi', 'CSS0035237' => 'camsi', 'CSS0046376' => 'camsi', 'CSS0050197' => 'camsi', 'DCAR_006290' => 'dca', 'DCAR_009300' => 'dca', 'DCAR_015669' => 'dca', 'DCAR_020832' => 'dca', 'DCAR_026589' => 'dca', 'Dinv08527' => 'din', 'Dinv35766' => 'din', 'Dinv37297' => 'din', 'Dinv39545' => 'din', 'Dinv40171' => 'din', 'Dinv41884' => 'din', 'Duzib052G1130' => 'dzi', 'Duzib093G0217' => 'dzi', 'Duzib106G1925' => 'dzi', 'Duzib128G0686' => 'dzi', 'Duzib147G0227' => 'dzi', 'Duzib187G0035' => 'dzi', 'Duzib248G0538' => 'dzi', 'ECA233G0367' => 'eca', 'ECA238G2194' => 'eca', 'ECA248G2867' => 'eca', 'EL10Ac4g09120' => 'bvu', 'EL10Ac6g13374' => 'bvu', 'EL10Ac7g16596' => 'bvu', 'Eucgr.A01135' => 'egr', 'Eucgr.I01510' => 'egr', 'Eucgr.I02232' => 'egr', 'FAN02G4528' => 'fan', 'FAN05G4680' => 'fan', 'FAN09G0947' => 'fan', 'FAN14G1015' => 'fan', 'FAN15G1400' => 'fan', 'FAN19G3007' => 'fan', 'FAN20G0199' => 'fan', 'FAN23G0640' => 'fan', 'FAN24G1605' => 'fan', 'FAN24G1819' => 'fan', 'FAN24G1853' => 'fan', 'FAN26G0946' => 'fan', 'FAN27G0468' => 'fan', 'FAN28G2530' => 'fan', 'FvH4_1g10550' => 'fve', 'FvH4_2g16520' => 'fve', 'FvH4_6g16070' => 'fve', 'Glyma.02G042100' => 'gma', 'Glyma.10G058100' => 'gma', 'Glyma.11G084000' => 'gma', 'Glyma.13G144900' => 'gma', 'Glyma.14G001900' => 'gma', 'Glyma.16G118900' => 'gma', 'Gohir.A04G125400' => 'ghi', 'Gohir.A09G148800' => 'ghi', 'Gohir.A12G033550' => 'ghi', 'Gohir.A12G058000' => 'ghi', 'Gohir.D04G170300' => 'ghi', 'Gohir.D09G144600' => 'ghi', 'Gohir.D12G039100' => 'ghi', 'Gohir.D12G057800' => 'ghi', 'Gorai.006G165900' => 'gra', 'Gorai.008G040900' => 'gra', 'Gorai.008G061000' => 'gra', 'Gorai.012G158700' => 'gra', 'GSVIVG01003837001' => 'vvi', 'GSVIVG01023949001' => 'vvi', 'GSVIVG01025704001' => 'vvi', 'HanXRQChr01g0027931' => 'han', 'HanXRQChr04g0100561' => 'han', 'HanXRQChr04g0106021' => 'han', 'HanXRQChr07g0192071' => 'han', 'HanXRQChr09g0248521' => 'han', 'HanXRQChr10g0318271' => 'han', 'HanXRQChr11g0350191' => 'han', 'HanXRQChr11g0353151' => 'han', 'HanXRQChr12g0360381' => 'han', 'HanXRQChr14g0442361' => 'han', 'HanXRQChr14g0459041' => 'han', 'Haze_02051' => 'cav', 'Haze_03681' => 'cav', 'Haze_20578' => 'cav', 'Haze_26229' => 'cav', 'Haze_26239' => 'cav', 'Haze_27308' => 'cav', 'Hma1.2p1_0111F.1_g053330' => 'hma', 'Hma1.2p1_0177F.1_g077970' => 'hma', 'Hma1.2p1_0205F.1_g087320' => 'hma', 'Hma1.2p1_0211F.1_g089810' => 'hma', 'Hma1.2p1_0271F.1_g108990' => 'hma', 'Hma1.2p1_0460F.1_g157370' => 'hma', 'Hma1.2p1_0668F.1_g199930' => 'hma', 'Hma1.2p1_1639F.1_g295020' => 'hma', 'Hma1.2p1_3091F.1_g332560' => 'hma', 'HPP92_005660' => 'vpl', 'HPP92_020251' => 'vpl', 'Hund19709' => 'sun', 'Hund20267' => 'sun', 'Hund20268' => 'sun', 'Lalb_Chr02g0156071' => 'lal', 'Lalb_Chr05g0211941' => 'lal', 'Lalb_Chr06g0171611' => 'lal', 'Lalb_Chr06g0171661' => 'lal', 'Lalb_Chr09g0321301' => 'lal', 'Lalb_Chr09g0334291' => 'lal', 'Lalb_Chr21g0314921' => 'lal', 'Lj2A114G37' => 'lonja', 'Lj2C492G1' => 'lonja', 'Lj2g0014905' => 'lja', 'Lj3A983G63' => 'lonja', 'Lj4C232T16' => 'lonja', 'Lj4C232T17' => 'lonja', 'Lj4g0020981' => 'lja', 'Lj5g0009809' => 'lja', 'Lj6A568G15' => 'lonja', 'Lj6A568T15' => 'lonja', 'Lsat_1_v5_gn_1_53221' => 'lsa', 'Lsat_1_v5_gn_2_46800' => 'lsa', 'Lsat_1_v5_gn_2_74480' => 'lsa', 'Lsat_1_v5_gn_4_157861' => 'lsa', 'Lsat_1_v5_gn_4_169620' => 'lsa', 'Lsat_1_v5_gn_6_31160' => 'lsa', 'Lsat_1_v5_gn_7_59801' => 'lsa', 'Lsat_1_v5_gn_8_120341' => 'lsa', 'Manes.01G153600' => 'mes', 'Manes.02G112500' => 'mes', 'Manes.08G008500' => 'mes', 'Manes.09G063800' => 'mes', 'Mapoly0002s0215' => 'mpo', 'Mapoly0029s0048' => 'mpo', 'MBI14_g16288_MAGBIO' => 'mbi', 'MBI16_g36497_MAGBIO' => 'mbi', 'MBI19_g03290_MAGBIO' => 'mbi', 'MD02G1119700' => 'mdo', 'MD04G1096100' => 'mdo', 'MD05G1133600' => 'mdo', 'MD10G1138600' => 'mdo', 'MD12G1116100' => 'mdo', 'MD15G1233500' => 'mdo', 'Medtr1g064070' => 'mtr', 'Medtr3g101470' => 'mtr', 'Medtr5g023740' => 'mtr', 'Medtr8g074030' => 'mtr', 'MELO3C007968.2' => 'cme', 'MELO3C013505.2' => 'cme', 'MELO3C014221.2' => 'cme', 'Migut.J00543' => 'egut', 'Migut.J00544' => 'egut', 'Migut.L01686' => 'egut', 'Migut.N01351' => 'egut', 'MSTRG.10314' => 'ama', 'MSTRG.16952' => 'ama', 'MSTRG.19159' => 'ama', 'MSTRG.27621' => 'ama', 'Nitab4.5_0000416g0070' => 'nta', 'Nitab4.5_0000702g0050' => 'nta', 'Nitab4.5_0000783g0210' => 'nta', 'Nitab4.5_0001700g0080' => 'nta', 'Nitab4.5_0001700g0090' => 'nta', 'Nitab4.5_0002281g0090' => 'nta', 'Nitab4.5_0002463g0020' => 'nta', 'Nitab4.5_0003828g0020' => 'nta', 'Nitab4.5_0010213g0010' => 'nta', 'Nn1g09494' => 'nnu', 'Nn1g09495' => 'nnu', 'Nn2g12778' => 'nnu', 'Nn2g12843' => 'nnu', 'Nn2g13725' => 'nnu', 'Nn7g37472' => 'nnu', 'Nn8g40485' => 'nnu', 'Oeu020640.4' => 'oeu', 'Oeu021966.1' => 'oeu', 'Oeu028608.1' => 'oeu', 'Oeu036026.1' => 'oeu', 'Oeu036622.1' => 'oeu', 'Os01g0276100' => 'osa', 'Os02g0595500' => 'osa', 'Os04g0479200' => 'osa', 'Peaxi162Scf00026g02614' => 'pax', 'Peaxi162Scf00121g00081' => 'pax', 'Peaxi162Scf00205g00010' => 'pax', 'Peaxi162Scf00362g00238' => 'pax', 'Peaxi162Scf01183g00136' => 'pax', 'Peaxi162Scf12724g00012' => 'pax', 'PGR119G0828' => 'pgr', 'PGR142G0609' => 'pgr', 'PGR142G2266' => 'pgr', 'PGSC0003DMG400001525' => 'stu', 'PGSC0003DMG400016826' => 'stu', 'PGSC0003DMG400026246' => 'stu', 'Phvul.002G114600' => 'pvu', 'Phvul.003G268900' => 'pvu', 'Phvul.007G150400' => 'pvu', 'Phvul.008G291500' => 'pvu', 'Potri.004G204300' => 'ptr', 'Potri.005G099600' => 'ptr', 'Potri.006G126700' => 'ptr', 'Potri.007G064000' => 'ptr', 'Potri.009G165200' => 'ptr', 'Potri.016G091200' => 'ptr', 'Pp3c15_3920' => 'ppa', 'Pp3c20_2020' => 'ppa', 'Pp3c24_19500' => 'ppa', 'Pp3c8_18310' => 'ppa', 'Pp3c9_16040' => 'ppa', 'Pp3c9_4370' => 'ppa', 'PRCOL_00006410' => 'pco', 'Prupe.3G128300' => 'ppe', 'Prupe.6G235200' => 'ppe', 'Prupe.7G179400' => 'ppe', 'Prupe.8G177400' => 'ppe', 'Psat0s3123g0040' => 'psa', 'Psat2g130000' => 'psa', 'Psat6g072320' => 'psa', 'PSO170G0761' => 'pso', 'PSO210G5029' => 'pso', 'PSO302G0184' => 'pso', 'PSO339G0862' => 'pso', 'PSO384G4296' => 'pso', 'PSO541G2078' => 'pso', 'PSO675G8372' => 'pso', 'QL06p052713' => 'qlo', 'QL06p053867' => 'qlo', 'QL07p044122' => 'qlo', 'QL11p053958' => 'qlo', 'QL11p053968' => 'qlo', 'QL93p2013_0020' => 'qlo', 'RcHm_v2.0_Chr0c39g0503111' => 'rch', 'RcHm_v2.0_Chr2g0097601' => 'rch', 'RcHm_v2.0_Chr2g0110731' => 'rch', 'RcHm_v2.0_Chr2g0135691' => 'rch', 'RcHm_v2.0_Chr2g0145421' => 'rch', 'RcHm_v2.0_Chr3g0469901' => 'rch', 'RcHm_v2.0_Chr4g0395881' => 'rch', 'RcHm_v2.0_Chr6g0260871' => 'rch', 'RcHm_v2.0_Chr6g0268821' => 'rch', 'RcHm_v2.0_Chr6g0280491' => 'rch', 'RcHm_v2.0_Chr6g0280541' => 'rch', 'Rhsim04G0145600' => 'rsi', 'Rhsim05G0048000' => 'rsi', 'Rhsim05G0179700' => 'rsi', 'Rhsim08G0028200' => 'rsi', 'Rhsim10G0199500' => 'rsi', 'Rhsim10G0199600' => 'rsi', 'Rhsim10G0201100' => 'rsi', 'Rhsim10G0201300' => 'rsi', 'RhsimUnG0142300' => 'rsi', 'Sabra05G0082300' => 'sbr', 'Sabra06G0099800' => 'sbr', 'Sabra07G0051900' => 'sbr', 'Sabra07G0052000' => 'sbr', 'Sabra09G0129200' => 'sbr', 'Sabra16G0096500' => 'sbr', 'SalBow1G5148' => 'sbo', 'SalBow5G0515' => 'sbo', 'SalBow5G1023' => 'sbo', 'SalBow5G2939' => 'sbo', 'SalBow5G4236' => 'sbo', 'Sc02g0001750' => 'sci', 'Sc08g0002410' => 'sci', 'Sc16g0001720' => 'sci', 'Sc20g0005310' => 'sci', 'Sed0003213' => 'sed', 'Sed0004464' => 'sed', 'Sed0010302' => 'sed', 'Sed0011810' => 'sed', 'Sed0028020' => 'sed', 'SEGI_05454' => 'sgi', 'SEGI_07527' => 'sgi', 'SEGI_08657' => 'sgi', 'SEGI_21395' => 'sgi', 'SEGI_29564' => 'sgi', 'SEGI_29659' => 'sgi', 'SEGI_36859' => 'sgi', 'SGA_v2.0_scaffold240G44151' => 'sas', 'SGA_v2.0_scaffold35G14137' => 'sas', 'SGA_v2.0_scaffold452G51822' => 'sas', 'SGA_v2.0_scaffold80G25820' => 'sas', 'SGA_v2.0_scaffold98G29295' => 'sas', 'SHI08466' => 'shi', 'SHI12489' => 'shi', 'SMO116G0405' => 'smo', 'SMO197G0048' => 'smo', 'Solyc02g082860.3' => 'sly', 'Solyc08g077920.3' => 'sly', 'Solyc08g077930.3' => 'sly', 'Solyc10g074500.2' => 'sly', 'Sopen00g008110' => 'spe', 'Sopen00g008120' => 'spe', 'Sopen02g027660' => 'spe', 'Sopen08g026440' => 'spe', 'Sopen10g027000' => 'spe', 'Sp3g08140' => 'spa', 'Sp3g30470' => 'spa', 'Sp6g39450' => 'spa', 'Sp7g33040' => 'spa', 'Sp7g33420' => 'spa', 'TAR625G0969' => 'tar', 'TAR628G0169' => 'tar', 'TAR633G1022' => 'tar', 'TAR633G2439' => 'tar', 'THA.LOC104807399' => 'tha', 'THA.LOC104807435' => 'tha', 'THA.LOC104816340' => 'tha', 'THA.LOC104819681' => 'tha', 'THA.LOC104823237' => 'tha', 'THA.LOC104826907' => 'tha', 'Thecc.01G007300' => 'tca', 'Thecc.02G045300' => 'tca', 'Thecc.02G047200' => 'tca', 'Thecc.05G062500' => 'tca', 'Thhalv10009866m.g' => 'esa', 'Thhalv10013851m.g' => 'esa', 'Thhalv10020958m.g' => 'esa', 'Thhalv10022743m.g' => 'esa', 'Thhalv10025418m.g' => 'esa', 'Thhalv10025508m.g' => 'esa', 'Thhalv10027171m.g' => 'esa', 'TPR.G168' => 'tpr', 'TPR.G18308' => 'tpr', 'TPR.G35226' => 'tpr', 'TPR.G35864' => 'tpr', 'TWI53G1376' => 'twi', 'TWI53G1964' => 'twi', 'TWI73G1028' => 'twi', 'TWI74G0832' => 'twi', 'unitig_0.g685' => 'ugi', 'unitig_26.g9987' => 'ugi', 'unitig_749.g13983' => 'ugi', 'vmacro08773' => 'vma', 'vmacro09565' => 'vma', 'vmacro17293' => 'vma', 'vmacro18454' => 'vma', 'vmacro20025' => 'vma', 'vmacro20521' => 'vma', 'VMungo0251G0974' => 'vmu', 'VMungo0647G0821' => 'vmu', 'VMungo0720G1963' => 'vmu', 'VMungo1215G1302' => 'vmu', 'Zm00001eb013280' => 'zma', 'Zm00001eb013290' => 'zma', 'Zm00001eb128830' => 'zma', 'Zm00001eb183760' => 'zma', 'Zm00001eb246080' => 'zma', 'Zm00001eb332780' => 'zma', 'Zm00001eb424940' => 'zma' ) $gf_id = 'HOM05D001144' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001144' ) $data_identifier = 'HOM05D001144' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 17, 'ath' => (int) 6, 'atr' => (int) 5, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 9, 'bra' => (int) 10, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 6, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 2, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 6, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 3, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 3, 'gma' => (int) 6, 'ghi' => (int) 8, 'gra' => (int) 4, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 6, 'hma' => (int) 9, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 7, 'lja' => (int) 3, 'lsa' => (int) 8, 'mes' => (int) 4, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 4, 'nta' => (int) 9, 'nnu' => (int) 7, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 6, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 3, 'pso' => (int) 7, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 9, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 7, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb424940' $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